Corrected coordinates are not ignored because there is a cache note. It's however two completely different methods to retrieve the data from Geocaching.com.
You should not expect Project-GC to ever find the coordinates in the "corrected coordinates" field if you don't specifically ask for it when building a GPX file from the VGPS system. It may very well find it, but the chance is fairly low.
Basically it comes down to the fact that the Geocaching LIVE api supports "Get all cache notes" but it doesn't support "Get all corrected coordinates". In other words, to find all your corrected coordinates, every single multi and mystery needs to be fetched with your access token from Geocaching.com. That's about 1 million geocaches, and the rate limit is somewhere around 5000 per day. So it could in theory be solved, but would take about a year, which would then be the average latency to find the data.